Comparative Genomic Analysis of the GRF Genes in Chinese Pear (Pyrus bretschneideri Rehd), Poplar (Populous), Grape (Vitis vinifera), Arabidopsis and Rice (Oryza sativa).
Identifieur interne : 001961 ( Main/Exploration ); précédent : 001960; suivant : 001962Comparative Genomic Analysis of the GRF Genes in Chinese Pear (Pyrus bretschneideri Rehd), Poplar (Populous), Grape (Vitis vinifera), Arabidopsis and Rice (Oryza sativa).
Auteurs : Yunpeng Cao [République populaire de Chine] ; Yahui Han [République populaire de Chine] ; Qing Jin [République populaire de Chine] ; Yi Lin [République populaire de Chine] ; Yongping Cai [République populaire de Chine]Source :
- Frontiers in plant science [ 1664-462X ] ; 2016.
Abstract
Growth-regulating factors (GRFs) are plant-specific transcription factors that have important functions in regulating plant growth and development. Previous studies on GRF family members focused either on a single or a small set of genes. Here, a comparative genomic analysis of the GRF gene family was performed in poplar (a model tree species), Arabidopsis (a model plant for annual herbaceous dicots), grape (one model plant for perennial dicots), rice (a model plant for monocots) and Chinese pear (one of the economical fruit crops). In total, 58 GRF genes were identified, 12 genes in rice (Oryza sativa), 8 genes in grape (Vitis vinifera), 9 genes in Arabidopsis thaliana, 19 genes in poplar (Populus trichocarpa) and 10 genes in Chinese pear (Pyrus bretschneideri). The GRF genes were divided into five subfamilies based on the phylogenetic analysis, which was supported by their structural analysis. Furthermore, microsynteny analysis indicated that highly conserved regions of microsynteny were identified in all of the five species tested. And Ka/Ks analysis revealed that purifying selection plays an important role in the maintenance of GRF genes. Our results provide basic information on GRF genes in five plant species and lay the foundation for future research on the functions of these genes.
DOI: 10.3389/fpls.2016.01750
PubMed: 27933074
PubMed Central: PMC5121280
Affiliations:
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Anhui Agricultural University Hefei, China.</nlm:affiliation><country xml:lang="fr">République populaire de Chine</country><wicri:regionArea>State Key Laboratory of Tea Plant Biology and Utilization, Anhui Agricultural University Hefei</wicri:regionArea><wicri:noRegion>Anhui Agricultural University Hefei</wicri:noRegion></affiliation></author><author><name sortKey="Jin, Qing" sort="Jin, Qing" uniqKey="Jin Q" first="Qing" last="Jin">Qing Jin</name><affiliation wicri:level="1"><nlm:affiliation>School of Life Sciences, Anhui Agricultural University Hefei, China.</nlm:affiliation><country xml:lang="fr">République populaire de Chine</country><wicri:regionArea>School of Life Sciences, Anhui Agricultural University Hefei</wicri:regionArea><wicri:noRegion>Anhui Agricultural University Hefei</wicri:noRegion></affiliation></author><author><name sortKey="Lin, Yi" sort="Lin, Yi" uniqKey="Lin Y" first="Yi" last="Lin">Yi Lin</name><affiliation wicri:level="1"><nlm:affiliation>School of Life 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populaire de Chine</country><wicri:regionArea>School of Life Sciences, Anhui Agricultural University Hefei</wicri:regionArea><wicri:noRegion>Anhui Agricultural University Hefei</wicri:noRegion></affiliation></author><author><name sortKey="Han, Yahui" sort="Han, Yahui" uniqKey="Han Y" first="Yahui" last="Han">Yahui Han</name><affiliation wicri:level="1"><nlm:affiliation>State Key Laboratory of Tea Plant Biology and Utilization, Anhui Agricultural University Hefei, China.</nlm:affiliation><country xml:lang="fr">République populaire de Chine</country><wicri:regionArea>State Key Laboratory of Tea Plant Biology and Utilization, Anhui Agricultural University Hefei</wicri:regionArea><wicri:noRegion>Anhui Agricultural University Hefei</wicri:noRegion></affiliation></author><author><name sortKey="Jin, Qing" sort="Jin, Qing" uniqKey="Jin Q" first="Qing" last="Jin">Qing Jin</name><affiliation wicri:level="1"><nlm:affiliation>School of Life Sciences, Anhui Agricultural University Hefei, China.</nlm:affiliation><country xml:lang="fr">République populaire de Chine</country><wicri:regionArea>School of Life Sciences, Anhui Agricultural University Hefei</wicri:regionArea><wicri:noRegion>Anhui Agricultural University Hefei</wicri:noRegion></affiliation></author><author><name sortKey="Lin, Yi" sort="Lin, Yi" uniqKey="Lin Y" first="Yi" last="Lin">Yi Lin</name><affiliation wicri:level="1"><nlm:affiliation>School of Life Sciences, Anhui Agricultural University Hefei, China.</nlm:affiliation><country xml:lang="fr">République populaire de Chine</country><wicri:regionArea>School of Life Sciences, Anhui Agricultural University Hefei</wicri:regionArea><wicri:noRegion>Anhui Agricultural University Hefei</wicri:noRegion></affiliation></author><author><name sortKey="Cai, Yongping" sort="Cai, Yongping" uniqKey="Cai Y" first="Yongping" last="Cai">Yongping Cai</name><affiliation wicri:level="1"><nlm:affiliation>School of Life Sciences, Anhui Agricultural University Hefei, China.</nlm:affiliation><country xml:lang="fr">République populaire de Chine</country><wicri:regionArea>School of Life Sciences, Anhui Agricultural University Hefei</wicri:regionArea><wicri:noRegion>Anhui Agricultural University Hefei</wicri:noRegion></affiliation></author></analytic><series><title level="j">Frontiers in plant science</title><idno type="ISSN">1664-462X</idno><imprint><date when="2016" type="published">2016</date></imprint></series></biblStruct></sourceDesc></fileDesc><profileDesc><textClass></textClass></profileDesc></teiHeader><front><div type="abstract" xml:lang="en">Growth-regulating factors (GRFs) are plant-specific transcription factors that have important functions in regulating plant growth and development. Previous studies on GRF family members focused either on a single or a small set of genes. Here, a comparative genomic analysis of the <i>GRF</i> gene family was performed in poplar (a model tree species), <i>Arabidopsis</i> (a model plant for annual herbaceous dicots), grape (one model plant for perennial dicots), rice (a model plant for monocots) and Chinese pear (one of the economical fruit crops). In total, 58 <i>GRF</i> genes were identified, 12 genes in rice (<i>Oryza sativa</i>), 8 genes in grape (<i>Vitis vinifera</i>), 9 genes in <i>Arabidopsis thaliana</i>, 19 genes in poplar (<i>Populus trichocarpa</i>) and 10 genes in Chinese pear (<i>Pyrus bretschneideri</i>). The <i>GRF</i> genes were divided into five subfamilies based on the phylogenetic analysis, which was supported by their structural analysis. Furthermore, microsynteny analysis indicated that highly conserved regions of microsynteny were identified in all of the five species tested. And Ka/Ks analysis revealed that purifying selection plays an important role in the maintenance of <i>GRF</i> genes. Our results provide basic information on <i>GRF</i> genes in five plant species and lay the foundation for future research on the functions of these genes.</div></front></TEI><pubmed><MedlineCitation Status="PubMed-not-MEDLINE" Owner="NLM"><PMID Version="1">27933074</PMID><DateRevised><Year>2020</Year><Month>09</Month><Day>29</Day></DateRevised><Article PubModel="Electronic-eCollection"><Journal><ISSN IssnType="Print">1664-462X</ISSN><JournalIssue CitedMedium="Print"><Volume>7</Volume><PubDate><Year>2016</Year></PubDate></JournalIssue><Title>Frontiers in plant science</Title><ISOAbbreviation>Front Plant Sci</ISOAbbreviation></Journal><ArticleTitle>Comparative Genomic Analysis of the <i>GRF</i> Genes in Chinese Pear (<i>Pyrus bretschneideri Rehd</i>), Poplar (<i>Populous</i>), Grape (<i>Vitis vinifera</i>), <i>Arabidopsis</i> and Rice (<i>Oryza sativa</i>).</ArticleTitle><Pagination><MedlinePgn>1750</MedlinePgn></Pagination><Abstract><AbstractText>Growth-regulating factors (GRFs) are plant-specific transcription factors that have important functions in regulating plant growth and development. Previous studies on GRF family members focused either on a single or a small set of genes. Here, a comparative genomic analysis of the <i>GRF</i> gene family was performed in poplar (a model tree species), <i>Arabidopsis</i> (a model plant for annual herbaceous dicots), grape (one model plant for perennial dicots), rice (a model plant for monocots) and Chinese pear (one of the economical fruit crops). In total, 58 <i>GRF</i> genes were identified, 12 genes in rice (<i>Oryza sativa</i>), 8 genes in grape (<i>Vitis vinifera</i>), 9 genes in <i>Arabidopsis thaliana</i>, 19 genes in poplar (<i>Populus trichocarpa</i>) and 10 genes in Chinese pear (<i>Pyrus bretschneideri</i>). The <i>GRF</i> genes were divided into five subfamilies based on the phylogenetic analysis, which was supported by their structural analysis. Furthermore, microsynteny analysis indicated that highly conserved regions of microsynteny were identified in all of the five species tested. And Ka/Ks analysis revealed that purifying selection plays an important role in the maintenance of <i>GRF</i> genes. Our results provide basic information on <i>GRF</i> genes in five plant species and lay the foundation for future research on the functions of these genes.</AbstractText></Abstract><AuthorList CompleteYN="Y"><Author ValidYN="Y"><LastName>Cao</LastName><ForeName>Yunpeng</ForeName><Initials>Y</Initials><AffiliationInfo><Affiliation>School of Life Sciences, Anhui Agricultural University Hefei, China.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Han</LastName><ForeName>Yahui</ForeName><Initials>Y</Initials><AffiliationInfo><Affiliation>State Key Laboratory of Tea Plant Biology and Utilization, Anhui Agricultural University Hefei, China.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Jin</LastName><ForeName>Qing</ForeName><Initials>Q</Initials><AffiliationInfo><Affiliation>School of Life Sciences, Anhui Agricultural University Hefei, China.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Lin</LastName><ForeName>Yi</ForeName><Initials>Y</Initials><AffiliationInfo><Affiliation>School of Life Sciences, Anhui Agricultural University Hefei, China.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Cai</LastName><ForeName>Yongping</ForeName><Initials>Y</Initials><AffiliationInfo><Affiliation>School of Life Sciences, Anhui Agricultural University Hefei, China.</Affiliation></AffiliationInfo></Author></AuthorList><Language>eng</Language><PublicationTypeList><PublicationType UI="D016428">Journal Article</PublicationType></PublicationTypeList><ArticleDate DateType="Electronic"><Year>2016</Year><Month>11</Month><Day>24</Day></ArticleDate></Article><MedlineJournalInfo><Country>Switzerland</Country><MedlineTA>Front Plant Sci</MedlineTA><NlmUniqueID>101568200</NlmUniqueID><ISSNLinking>1664-462X</ISSNLinking></MedlineJournalInfo><KeywordList Owner="NOTNLM"><Keyword MajorTopicYN="N">GRF</Keyword><Keyword MajorTopicYN="N">gene 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uniqKey="Han Y" first="Yahui" last="Han">Yahui Han</name><name sortKey="Jin, Qing" sort="Jin, Qing" uniqKey="Jin Q" first="Qing" last="Jin">Qing Jin</name><name sortKey="Lin, Yi" sort="Lin, Yi" uniqKey="Lin Y" first="Yi" last="Lin">Yi Lin</name></country></tree></affiliations></record>Pour manipuler ce document sous Unix (Dilib)
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